Charlie24
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000101 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Theria_mammals |
| Length | 2449 |
| Kimura value | 31.14 |
| Tau index | 0.0000 |
| Description | hAT-Charlie DNA transposon, Charlie24 subfamily |
| Comment | 14-16bp TIRs. ORF (roughly 354-2162) encodes a transposase closest to Charlie11 transposase (>50% identical, >67% similar). |
| Sequence |
AGATGTTTTTAAACTGNAGTCCATAGACAGGNCTTTAGGGGGTCCGTGAACCGGACACAAAAATATTTTTTTCTTTNATTTCTTTCCTGTTACTTTGAAAATTGTCTTTGTGAAAAAATTATTTTTATGTCAAATTATGTTATTAAGGTATTGTTTCACTCCAAACAAGTGTAGGGTGGCATGGGATGCTACTGTACATGGTCAGGTAATGTACAATTATCATCGTTACCATGTTATGACGTCTAGAATAGTTTCCCATTGATAGGAATTAAAGAAAACGTACCCTGCCATTATGATTATGGACATCTGTCTTTGTTTACATCGGGCCTAGCTTAAGTTGGAAAATGTCAAAGAAAAGAAAGTATAATGAAGCTTACGTATCCTTTGGTTTTACTTTCATCGCCGAACGTGATGGGACACAAAAGCCACGGTGCTTCTTGTGTGGCAAGGTTCTTGCCAATGGAAGCACGAAGCCAACAAAGCTGAAGGAGCACCTTATATCTGTCCATCCTGAAAATACATCAGACAGTGTGGATCTTTTTCGTGAGAAGAAGGCTCGATTTGAAAAGGCTGGAACTTTACCAAAACTTGGATTTGCCCCAACACAAAAGCCTTGTCTTGAAGCATCCTACAAGGTTGCTTATCGCATTGCCAAGCAAAAGAAGCCACACACAATTGGAGAGACCTTGGTGAAGCCATGTGCCCTGGAAATGGTCGAGCTGGTTTGTGGCTTGGAGCAGAGGAAGAAAATTGAAGCAGTGCCTCTGTCAAATGACGTCATCCACTCCAGAATCGCTGACATTTCTTCTAATATTTTGAAGCAGGTCATGGAGGAATTGGCAGCTATGCCATTTCCCTTCAGCATGCAACTGGATGAAACTACTGACGTCTCTCAGTGCAGCCAGCTCCTGGTTTTCGTCCGTTATGTGCACGCTGACGCCATCAAAGAAGAATTCCTATTTTGTGAGCCCCTTTTGGAAACTNCAAAGGCCGTCGACATCTTCGAAATGGTGAAAAGTTTCTTTGCCAAGCAAAACTTCGACTGGAAGAAAAATCTTGGTACTCTGTGCACAGATGGAGCACCTGCGATGCTTGGCAACACATCTGGTTTTGCTGCTTTGGTGAAGAAAGAAGCTCCACACGTCATCGTGACTCGTTGCTTTCTACATCGGCATGCATTGGCGTCAAAGACTCTGCCAACAATCCTGAAAGAAGTCTTGTCTACTGCCGTGAAAGTCGTCAACTTCATCAGAGCCAGGGCCTTGAATCACCGCCTTTTCAAGAGGTTTTGTCAAGAAATGGGAGCAGAATATGAAGTTCTTCTCTACTACACAGAAGTTCGCTGGCTTTCCAGAGGACAAGTCTTGAAGCGCTTGATTGAACTTCGGGCAGAAGTTTCACTTTTTTTGAGAGAAAAGGAAAGCCCACTCTCAGAACAATTTGACAGGGAGGAGTTCATTCATGGCTTGGCTTACTTGGCGGATATTTTTGGCCATATGAATGAGGTAAATCTTTCGATTCAAGGCCCTGCAGTCACCATTATGGATGCTGCTGAAAAACTACGAGCTCTTTTGGCCAAGCTGCCACTCTGGAAGAGGAGATTGGAGGCAGACAACTATGCGAACTTTCCAATGCTGGAGGAAGTGCTTCTGCAGGCTGGAGTCGAGAGTGACAAAGCCTTGTCAATTTCTCTGCAGGCAGAAATCTGCAGACACCTGGAAACACTGCAGAACTCTTTTGAAGGTTACTTCTGCTCAGACGACCTTAAAATTGAAACGTGGATTCGTAATCCTTTCCTTGCTGACATAGACAGCATCAATGATGCAGACCTTGCCAAAGATGACCTCATTGACTTGAGGACAAAGGAAATGATGCGACATGAATTCAACTCGAAGAGTCTTGGAGAATTCTGGTGTTCCTTGACACAAGCCTACCCTCATCTGGCAAAGCGAGCTATGGGAGCTCTGATTCCGTTTGCTACTACATACCTTTGTGAGTCAGGGTTTTCAGCACTTGTTGCCATCAAAACGAAAAGTCAAAATCGATTGGATGTCAAAGATGACATGCACGTTGCCATGTCAAAGACCACTCCACAATTTCAANCTTCATTCAAGCCAAACAACAGCAGCCTTCTCATTGAAATTTACTTTTGAGCAGAATTAAAGTTTACTTTTGTTTTATTTGCACAATTTGGATTTATTTCNATTTTTTTCAGGAAGTGGCCATTAATTTTTGCATGAAAAATGAGAGTGAGAGACATAATTCTTTGTAAAGATTGTTTTTATATTCTGTCTATGTGAAGGAAATNAATTTCCAATGCAATAAAATAAATTGTATGCAAAATATTTGTGTGTATGTGTNTATGTGCATTTTTTTCTGGGGAGAGAGTCCATAGCTTTCATCAGATTCTCAAAGGGGTCCGTGACCCAAAAAAGGTTAAGAACCACTG
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TF motifs of the concenus sequence
Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.
| TE_family | TFBS | Start | End | Strand | Score | Matched sequence |
|---|---|---|---|---|---|---|
| Charlie24 | Rarb | 1841 | 1856 | - | -4.62 | CAAGTCAATGAGGTCA |
| Charlie24 | RARA | 1503 | 1520 | + | -9.45 | GAGGTAAATCTTTCGATT |
| Charlie24 | ZSCAN16 | 1188 | 1205 | - | -15.15 | GATTGTTGGCAGAGTCTT |
| Charlie24 | ZSCAN16 | 1283 | 1300 | - | -22.02 | ATTTCTTGACAAAACCTC |
| Charlie24 | BPC5 | 342 | 371 | + | -48.55 | AAAATGTCAAAGAAAAGAAAGTATAATGAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
